☰ Navigation Tabs
Structure of human apo-SRP72
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5WRV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 277 (NH4)2SO4
Crystal Properties Matthews coefficient Solvent content 3.51 64.94
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 83.435 α = 90 b = 123.715 β = 90 c = 150.723 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD RIGAKU 2015-06-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U 0.9792 SSRF BL17U
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 2.91 50 100 0.098 26.2 7.8 35059
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 5WRV 2.91 50.01 33221 1719 99.92 0.23371 0.23194 0.2325 0.2664 0.232 RANDOM 93.944
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] 4.41 -3.21 -1.2
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.611 r_dihedral_angle_3_deg 16.856 r_dihedral_angle_4_deg 14.454 r_long_range_B_refined 10.431 r_long_range_B_other 10.422 r_mcangle_it 7.774 r_mcangle_other 7.774 r_scangle_other 6.914 r_dihedral_angle_1_deg 5.666 r_mcbond_it 4.828
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.611 r_dihedral_angle_3_deg 16.856 r_dihedral_angle_4_deg 14.454 r_long_range_B_refined 10.431 r_long_range_B_other 10.422 r_mcangle_it 7.774 r_mcangle_other 7.774 r_scangle_other 6.914 r_dihedral_angle_1_deg 5.666 r_mcbond_it 4.828 r_mcbond_other 4.828 r_scbond_it 4.214 r_scbond_other 4.203 r_angle_refined_deg 1.2 r_angle_other_deg 0.942 r_chiral_restr 0.063 r_bond_refined_d 0.009 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6143 Nucleic Acid Atoms Solvent Atoms 89 Heterogen Atoms 10
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing